1Y37 | pdb_00001y37

Structure of Fluoroacetate Dehalogenase from Burkholderia sp. FA1

PDB DOI: https://doi.org/10.2210/pdb1Y37/pdb

Classification: HYDROLASE
Organism(s): Burkholderia sp. FA1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2004-11-23 Released: 2006-02-28
Deposition Author(s): Omi, R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.203 (Depositor), 0.203 (DCC)
R-Value Work:
0.181 (Depositor), 0.181 (DCC)
R-Value Observed:
0.181 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1Y37

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure of Fluoroacetate Dehalogenase FA1

Omi, R., Jitsumori, K., Kurihara, T., Esaki, N., Goto, M., Miyahara, I., Hirotsu, K.

To be published.

Macromolecule Content

Total Structure Weight: 68.31 kDa
Atom Count: 4,966
Modeled Residue Count: 588
Deposited Residue Count: 608
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluoroacetate Dehalogenase	A, B	304	Burkholderia sp. FA1	Mutation(s): 0 EC: 3.8.1.3
UniProt
Find proteins for Q1JU72 (Burkholderia sp) Explore Q1JU72 Go to UniProtKB: Q1JU72
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q1JU72
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B] mmCIF format, chain C [auth A] mmCIF format, chain D [auth B]	C [auth A], D [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.203 (Depositor), 0.203 (DCC)
R-Value Work: 0.181 (Depositor), 0.181 (DCC)
R-Value Observed: 0.181 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 85.942	α = 90
b = 137.631	β = 95.09
c = 52.92	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2006-02-28

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2006-02-28
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Source and taxonomy, Version format compliance
Version 1.3: 2024-02-14
Changes: Data collection, Database references, Derived calculations

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.